Variant report

Variant	rs10877172
Chromosome Location	chr12:59235397-59235398
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10877174	0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11172757	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11172758	0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11172764	0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11172769	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11172770	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11172772	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11514218	0.84[ASN][1000 genomes]
rs11534928	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12229019	0.99[ASN][1000 genomes]
rs12367032	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs56323549	0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs59324351	0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6581221	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7305422	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758311	chr12:59022729-59323045	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv2759902	chr12:59022729-59323045	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv1043385	chr12:59149582-59758952	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv1067596	chr12:59167152-59764208	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv492251	chr12:59167152-59764208	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
6	nsv899126	chr12:59199972-59255857	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1052044	chr12:59221968-59238386	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1038273	chr12:59232371-59259628	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:59234000-59236200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr12:59234400-59235600	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr12:59234600-59235400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:59234600-59235400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr12:59234600-59235600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr12:59234600-59235600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr12:59234800-59235400	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr12:59234800-59235400	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr12:59234800-59235600	Enhancers	H1 Cell Line	embryonic stem cell
10	chr12:59234800-59235600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr12:59235000-59235400	Enhancers	Lung	lung
12	chr12:59235000-59235400	Enhancers	HepG2	liver
13	chr12:59235000-59235600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr12:59235000-59235800	Active TSS	NHEK	skin
15	chr12:59235200-59235400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr12:59235200-59235600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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